A step forward in the genome characterization of the sugarcane borer, Diatraea saccharalis: karyotype analysis, sex chromosome system and repetitive DNAs through a cytogenomic approach

Abe H, Mita K, Yasukochi Y, Oshiki T, Shimada T (2005) Retrotransposable elements on the W chromosome of the silkworm, Bombyx mori. Cytogenet Genome Res 110:144–151. https://doi.org/10.1159/000084946

CAS  Article  PubMed  Google Scholar 

Bardella VB, Fernandes JAM, Cabral-de-Mello DC (2016) Chromosomal evolutionary dynamics of four multigene families in Coreidae and Pentatomidae (Heteroptera) true bugs. Mol Genet Genomics 291:1919–1925. https://doi.org/10.1007/s00438-016-1229-5

CAS  Article  PubMed  Google Scholar 

Benson G (1999) Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res 2:573–580. https://doi.org/10.1093/nar/27.2.573

Article  Google Scholar 

Biscotti MA, Olmo E, Heslop-Harrison JS (2015) Repetitive DNA in eukaryotic genomes. Chromosome Res 23:415–420. https://doi.org/10.1007/s10577-015-9499-z

CAS  Article  PubMed  Google Scholar 

Borges dos Santos L, Viana JPG, Francischini FJB, Fogliata SV, Joyce AL, Pereira de Souza A, Murúa MG, Clough SJ (2020) A first draft genome of the sugarcane borer, Diatraea saccharalis. F1000Research 9:1269. https://doi.org/10.12688/f1000research.26614.1

Article  Google Scholar 

Brown KS, Von Schoultz B, Suomalainen E (2004) Chromosome evolution in Neotropical Danainae and Ithomiinae (Lepidoptera). Hereditas 141:216–236. https://doi.org/10.1111/j.1601-5223.2004.01868.x

Article  PubMed  Google Scholar 

Cabral-de-Mello DC, Marec F (2021) Universal fluorescence in situ hybridization (FISH) protocol for mapping repetitive DNAs in insects and other arthropods. Mol Genet Genomics 296:513–526. https://doi.org/10.1007/s00438-021-01765-2

CAS  Article  PubMed  Google Scholar 

Cabral-de-Mello DC, Oliveira SG, de Moura R, Martins C (2011) Chromosomal organization of the 18S and 5S rRNAs and histone H3 genes in Scarabaeinae coleopterans: insights into the evolutionary dynamics of multigene families and heterochromatin. BMC Genet 12:88. https://doi.org/10.1186/1471-2156-12-88

CAS  Article  PubMed  PubMed Central  Google Scholar 

Cabral-de-Mello DC, Zrzavá M, Kubíčková S, Rendón P, Marec F (2021) The role of satellite DNAs in genomic architecture and sex chromosome evolution in Crambidae moths. Front Genet 12:661417. https://doi.org/10.3389/fgene.2021.661417

CAS  Article  PubMed  PubMed Central  Google Scholar 

Carabajal Paladino L, Provazníková I, Berger M, Bass C, Aratchige NS, López SN, Marec F, Nguyen P (2019) Sex chromosome turnover in moths of the diverse superfamily Gelechioidea. Genome Biol Evol 11:1307–1319. https://doi.org/10.1093/gbe/evz075

CAS  Article  PubMed  PubMed Central  Google Scholar 

Chalopin D, Volff JN, Galiana D, Anderson JL, Schartl M (2015) Transposable elements and early evolution of sex chromosomes in fish. Chromosome Res 23:545–560. https://doi.org/10.1007/s10577-015-9490-8

CAS  Article  PubMed  Google Scholar 

Charlesworth B, Sniegowski P, Stephan W (1994) The evolutionary dynamics of repetitive DNAs in eukaryotes. Nature 371:215–220. https://doi.org/10.1038/371215a0

CAS  Article  PubMed  Google Scholar 

Chénais B, Caruso A, Hiard S, Casse N (2012) The impact of transposable elements on eukaryotic genomes: from genome size increase to genetic adaptation to stressful environments. Gene 509:7–15. https://doi.org/10.1016/j.gene.2012.07.042

CAS  Article  PubMed  Google Scholar 

Dalíková M, Zrzavá M, Hladová I, Nguyen P, Šonský I, Flegrová M, Kubíčková S, Voleníková A, Kawahara AY, Peters RS, Marec F (2017a) New insights into the evolution of the W chromosome in Lepidoptera. J Hered 108:709–719. https://doi.org/10.1093/jhered/esx063

CAS  Article  PubMed  Google Scholar 

Dalíková M, Zrzavá M, Kubíčková S, Marec F (2017b) W-enriched satellite sequence in the Indian meal moth, Plodia interpunctella (Lepidoptera, Pyralidae). Chromosome Res 25:241–252. https://doi.org/10.1007/s10577-017-9558-8

CAS  Article  PubMed  Google Scholar 

Deakin JE, Potter S, O’Neill R, Ruiz-Herrera A, Cioffi MB et al (2019) Chromosomics: bridging the gap between genomes and chromosomes. Genes 10:627. https://doi.org/10.3390/genes10080627

CAS  Article  PubMed Central  Google Scholar 

Ferretti ABSM, Milani D, Palacios-Gimenez OM, Ruiz-Ruano FJ, Cabral-de-Mello DC (2020) High dynamism for neo-sex chromosomes: satellite DNA reveal complex evolution in a grasshopper. Heredity 125:124–137. https://doi.org/10.1038/s41437-020-0327-7

CAS  Article  PubMed  PubMed Central  Google Scholar 

Flynn JL, Reagan TE, Ogunwolu EO (1984) Establishment and damage of the sugarcane borer (Lepidoptera: Pyralidae) in corn as influenced by plant development. J Econ Entomol 77:691–697. https://doi.org/10.1093/jee/77.3.691

Article  Google Scholar 

Fuková I, Traut W, Vítková M, Kubíčková S, Marec F (2007) Probing the W chromosome of the coding moth, Cydia pomonella, with sequences from microdissected sex chromatin. Chromosoma 116:135–145. https://doi.org/10.1007/s00412-006-0086-0

CAS  Article  PubMed  Google Scholar 

Goubert C, Modolo L, Vieira C, ValienteMoro C, Mavingui P, Boulesteix M (2015) De novo assembly and annotation of the Asian tiger mosquito (Aedes albopictus) repeatome with dnaPipeTE from raw genomic reads and comparative analysis with the yellow fever mosquito (Aedes aegypti). Genome Biol Evol 7:1192–1205. https://doi.org/10.1093/gbe/evv050

CAS  Article  PubMed  PubMed Central  Google Scholar 

Grabherr MG, Haas BJ, Yassour M et al (2011) Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nat Biotechnol 29:644–652. https://doi.org/10.1038/nbt.1883

CAS  Article  PubMed  PubMed Central  Google Scholar 

Gregory TR (2020) Animal genome size database. Available online at: http://www.genomesize.com

Gunderina L, Golygina V, Broshkov A (2015) Chromosomal organization of the ribosomal RNA genes in the genus Chironomus (Diptera, Chironomidae). Comp Cytogenet 9:201–220. https://doi.org/10.3897/CompCytogen.v9i2.9055

Article  PubMed  PubMed Central  Google Scholar 

Hejníčková M, Dalíková M, Potocký P, Tammaru T, Trehubenko M, Kubíčková S, Marec F, Zrzavá M (2021) Degenerated, undifferentiated, rearranged, lost: high variability of sex chromosomes in Geometridae (Lepidoptera) indentified by sex chromatin. Cells 10:2230. https://doi.org/10.3390/cells10092230

CAS  Article  PubMed  PubMed Central  Google Scholar 

Hill J, Rastas P, Hornett EA et al (2019) Unprecedented reorganization of holocentric chromosomes provides insights into the enigma of lepidopteran chromosome evolution. Sci Adv 5:eaau3648. https://doi.org/10.1126/sciadv.aau3648

CAS  Article  PubMed  PubMed Central  Google Scholar 

Hobza R, Kubat Z, Cegan R, Jesionek W, Vyskot B, Kejnovsky E (2015) Impact of repetitive DNA on sex chromosomes in plants. Chromosome Res 23:561–570. https://doi.org/10.1007/s10577-015-9496-2

CAS  Article  PubMed  Google Scholar 

Ijdo JM, Wells RA, Baldini A, Reeders ST (1991) Improved telomere detection using a telomere repeat probe (TTAGGG)n generated by PCR. Nucleic Acids Res 19:4780. https://doi.org/10.1093/nar/19.17.4780

CAS  Article  PubMed  PubMed Central  Google Scholar 

Joyce AL, White WH, Nuessly GS, Alma Solis M, Scheffer SJ, Lewis ML, Medina RF (2014) Geographic population structure of the sugarcane borer, Diatraea saccharalis (F.) (Lepidoptera: Crambidae), in the Southern United States. PLoS One 9:e110036. https://doi.org/10.1371/journal.pone.0110036

CAS  Article  PubMed  PubMed Central  Google Scholar 

Kageyma D, Traut W (2004) Opposite sex-specific effects of Wolbachia and interference with the sex determination of its host Ostrinia scapulalis. Proc Biol Sci 271:251–258. https://doi.org/10.1098/rspb.2003.2604

Article  Google Scholar 

Kandul NP, Lukhtanov VA, Pierce NE (2007) Karyotypic diversity and speciation in Agrodiaetus butterflies. Evolution 61:546–559. https://doi.org/10.1111/j.1558-5646.2007.00046.x

Article  PubMed  Google Scholar 

Kejnovský E, Michalovova M, Steflova P, Kejnovska I, Manzano S, Hobza R, Kubat Z, Kovarik J, Jamilena M, Boris V (2013) Expansion of microsatellites on evolutionary young Y chromosome. PLoS ONE 8:e45519. https://doi.org/10.1371/journal.pone.0045519

CAS  Article  PubMed  PubMed Central  Google Scholar 

Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111–120. https://doi.org/10.1007/BF01731581

CAS  Article  PubMed  Google Scholar 

King EG, Brewer FD, Martin DF (1975) Development of Diatraea saccharalis [Lep.: Pyralidae] at constant tempratures. Entomophaga 20:301–306. https://doi.org/10.1007/BF02371955

Article  Google Scholar 

Lopes DA, Cantagalli LB, Stuchi ALPB, Mangolin CA, Ruvolo-Takasusuki MCC (2014) Population genetics of the sugarcane borer Diatraea saccharalis (Fabr.) (Lepidoptera: Crambidae). Acta Sci Agron 36:189–194. https://doi.org/10.4025/actasciagron.v36i2.16211

Article  Google Scholar 

López-Flores I, Garrido-Ramos MA (2012) The repetitive DNA content of eukaryotic genomes. Genome Dyn 7:1–28. https://doi.org/10.1159/000337118

Article  PubMed  Google Scholar 

Lukhtanov VA (2000) Sex chromatin and sex chromosome systems in nonditrysian Lepidoptera (Insecta). J Zool Syst Evol Res 38:73–79. https://doi.org/10.1046/j.1439-0469.2000.382130.x

Article  Google Scholar 

Lukhtanov VA (2015) The blue butterfly Polyommatus (Plebicula) atlanticus (Lepidoptera, Lycaenidae) holds the record of the highest number of chromosomes in the non-polyploid eukaryotic organisms. Comp Cytogenet 9:683–690. https://doi.org/10.3897/CompCytogen.v9i4.5760

Article  PubMed  PubMed Central 

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